MmuINT0089587 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179921506-179921981:-
Coord C1 exon
chr2:179921881-179921981
Coord A exon
chr2:179921687-179921880
Coord C2 exon
chr2:179921506-179921686
Length
194 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGG
5' ss Score
4.44
3' ss Seq
GACGACGTGATTTATCACAGGAA
3' ss Score
5.09
Exon sequences
Seq C1 exon
GGTGTGACTGTTCCCCATGTGGGACAGAAACCTGTGATCCCCAGAGTGGACGCTGCCTGTGCAAAGCAGGCGTGACTGGACAACGTTGTGACCGCTGTTTG
Seq A exon
GTAGGGCTGGCAGTGGCCTGAGAACGGGGTGGGCTAGGAGGGAGGAAGTGTGCTGAGGGAGAGTCCTGGTCTGTGGAGAAATGGGCCGGGGGGAGCTTGGGCTGGTCATAGGAGCCTGAGCTAGCCCAGGTTTCCAGGGCTGCCAGGTGTGACGCTAAGGGCTAGACAGGCTGTGACGACGTGATTTATCACAG
Seq C2 exon
GAAGGATACTTCGGTTTTGAGCAATGCCAGGGCTGCCGCCCTTGTGCCTGTGGACCAGCTGCCAAGGGCTCCGAGTGCCACCCTCAGAGCGGTCAGTGTCACTGCCAGCCAGGGACCACAGGACCCCAGTGCCTCGAGTGCGCCCCTGGCTACTGGGGCCTCCCAGAGAAGGGCTGCAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:46
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(71.1=94.1)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.4=18.0),PF0005319=Laminin_EGF=PU(92.0=75.4)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCTGTGATCCCCAGAGTGG
R:
GCCTGCAGCCCTTCTCTG
Band lengths:
254-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: